Scalable microfluidics for single-cell RNA printing and sequencing

STAR: ultrafast universal RNA-seq aligner

Alexander Dobin, Carrie Davis, Felix Schlesinger et al. · Bioinformatics · 2012 · 53.2K citations · Full text

Visualizing Data using t-SNE

Laurens van der Maaten, Geoffrey E. Hinton · Journal of Machine Learning Research · 2008 · 35.7K citations

Engineering, Data Visualization, Data Exploration +16

HTSeq—a Python framework to work with high-throughput sequencing data

Simon Anders, Paul Theodor Pyl, Wolfgang Huber · Bioinformatics · 2014 · 21.9K citations · Full text

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

Cole Trapnell, Brian A. Williams, Geo Pertea et al. · Nature Biotechnology · 2010 · 16.1K citations

Developmental Biology, Functional Genomics, Rna Biology +10

mRNA-Seq whole-transcriptome analysis of a single cell

Fuchou Tang, Cátálin Bárbácioru, Yangzhou Wang et al. · Nature Methods · 2009 · 3.9K citations

Single Cell Sequencing, Medicine, Single-cell Biology +9